FIFA suspended Kenya from international competition provisionally for failing to implement Cairo agreements.
The ban came into effect from Tuesday.
The world governing body has long been urging Kenya to implement a 28-point agreement signed in Cairo in January by FIFA, the chairman of the Kenya Football Federation (KFF) Alfred Sambu, African soccer's ruling body CAF and representatives of Kenyan clubs and government officials.
The east African nation's most popular sport is in a mess with two rival organisations running parallel leagues.
In the agreement, FIFA wants Kenya Premier League Ltd (KPL) to run a league featuring 18 clubs, but the KFF set up a company, KFF PL, to run a 20-team league.
A meeting was held on Oct 2 involving the rival bodies and a unified league was due to start two weeks later.
But both sides then came up with parallel fixtures, which ended with a farcical situation when only a few matches were played.
The same 18 clubs are competing in both competitions with an extra two in the 20-team league.